Computational protocol: PARP-1 Variant Rs1136410 Confers Protection against Coronary Artery Disease in a Chinese Han Population: A Two-Stage Case-Control Study Involving 5643 Subjects

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Protocol publication

[…] The differences in demographics between cases and controls were compared by the Student's t-test (for quantitative variables) and the Pearson χ2 test (for qualitative variables). Hardy-Weinberg equilibrium (HWE) for SNP rs1136410 was evaluated by the Pearson χ2 test. Allelic and genotypic (additive, recessive, dominant) associations of SNP rs1136410 with CAD risk were tested by logistic regression analyses before and after adjusting for age, sex, smoking status, alcohol drinking status, BMI, and histories of hyperlipidemia, T2DM, and hypertension. The 100,000-time Monte-Carlo permutation test was used to control for multiple testing (Jiang et al., ). The homogeneity of ORs between two sets was analyzed by the Breslow-Day test. In subgroup analyses, we used the multiplicative likelihood ratio test to examine the potential gene-environment interactions in CAD risk. The effect of SNP rs1136410 on CAD severity was appraised by the linear-by-linear association χ2 test. Multivariable linear regression analyses were conducted to test the associations of SNP rs1136410 with lipid levels, IL-6 levels, 8-OHdG levels, and PARP activities, as well as the effects of IL-6 levels, 8-OHdG levels, or PARP activities on CAD risk and vessel scores. We used the Pearson (for normal distributed data) or Spearman (for skewed data) correlation test to assess the correlations between IL-6 levels, 8-OHdG levels, PARP activities, and modified Gensini scores. All these analyses set P < 0.05 (two-tailed) as a significant level in SPSS 17.0 (SPSS Inc., Chicago, IL, USA) and PLINK programs. The statistical power was estimated by PS 3.0 software (Vanderbilt University, Nashville, TN, USA). […]

Pipeline specifications

Software tools SPSS, PLINK
Applications Miscellaneous, GWAS
Organisms Homo sapiens
Diseases Coronary Artery Disease, Diabetes Mellitus, Hyperlipidemias